2021
DOI: 10.1101/2021.12.14.472593
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Single-cell resolution unravels spatial alterations in metabolism, transcriptome and epigenome of ageing liver

Abstract: Epigenetic ageing clocks have revealed that tissues within an organism can age with different velocity. However, it has not been explored whether cells of one type experience different ageing trajectories within a tissue depending on their location. Here, we employed lipidomics, spatial transcriptomics and single-cell ATAC-seq in conjunction with available single-cell RNA-seq data to address how cells in the murine liver are affected by age-related changes of the microenvironment. Integration of the datasets r… Show more

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Cited by 4 publications
(5 citation statements)
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“…Thus, changes in the nascent transcriptome might be buffered through post‐transcriptional mechanisms affecting RNA stability. This is consistent with recent results analyzing single‐cell RNA‐ and ATAC‐seq data of aged murine liver, which also highlighted the important contribution of post‐transcriptional processes (preprint: Nikopoulou et al , 2021 ).…”
Section: Discussionsupporting
confidence: 92%
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“…Thus, changes in the nascent transcriptome might be buffered through post‐transcriptional mechanisms affecting RNA stability. This is consistent with recent results analyzing single‐cell RNA‐ and ATAC‐seq data of aged murine liver, which also highlighted the important contribution of post‐transcriptional processes (preprint: Nikopoulou et al , 2021 ).…”
Section: Discussionsupporting
confidence: 92%
“…In support of this, no global changes in nucleosome occupancy (assessed using H3 occupancy as a proxy) have been reported in aged murine liver tissue; only at a subset of loci either increased or decreased occupancy was observed (Chen et al , 2020 ). Previous work also highlighted that aging in the liver is not accompanied by major changes in cell‐type composition (preprint: Nikopoulou et al , 2021 ).…”
Section: Discussionmentioning
confidence: 99%
See 1 more Smart Citation
“…Thus, changes in the nascent transcriptome might be buffered through post-transcriptional mechanisms affecting RNA stability. This is consistent with recent results analyzing single-cell RNA-and ATAC-seq data of aged murine liver, which also highlighted the important contribution of post-transcriptional processes (Nikopoulou et al , 2021).…”
Section: Discussionsupporting
confidence: 93%
“…Given the transcriptome diversity intrinsic to the aging process (40,41), and in view of the lobular heterogeneities in lipid distribution and fibrosis, we performed additional RNA-seq analysis for short- term treated mice (3w CD-HFD + 7w CD-HFD+ATX-304, 15-week-old). The transcriptome of the left liver lobe of RD, CD-HFD and 0304-treated CD-HFD mice, as well as the right median liver lobe from ATX-304-treated mice were analyzed.…”
Section: Resultsmentioning
confidence: 99%